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PR00988

Identifier
URIDINKINASE  [View Relations]  [View Alignment]  
Accession
PR00988
No. of Motifs
6
Creation Date
02-OCT-1998  (UPDATE 29-JUL-1999)
Title
Uridine kinase signature
Database References

INTERPRO; IPR000764
Literature References
1. ROPP, P.A. AND TRAUT, T.W.
Cloning and expression of a cDNA encoding uridine kinase from mouse brain.
ARCH.BIOCHEM.BIOPHYS. 336 105-112 (1996).
 
2. KANEKO, T. AND YAMAMOTO, H.
Cytidine kinase: A novel pyrimidine ribonucleoside phosphorylating enzyme 
in Eschericha coli.
NUCLEOSIDES NUCLEOTIDES 16 2111-2122 (1997).

Documentation
Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting 
enzyme in the pyrimidine salvage pathway [1]. It catalyses the reaction:
 
		   ATP + Uridine = ADP + UMP
 
A cDNA for uridine kinase from mouse brain has been characterised [1]. The
translated sequence encodes a protein of 277 amino acids. A truncated form 
of the cDNA has been expressed in Escherichia coli and shown to display
uridine kinase activity and to readily form a tetramer, the most active
form of the wild-type enzyme [1]. Sequence analysis has identified three 
ATP-binding site consensus motifs. The predicted secondary structure, and 
sequence comparison with kinases of known structure, is consistent with
uridine kinase having the alpha/beta core nucleotide-binding fold common 
to many kinases [1].
 
A previously undescribed pyrimidine ribonucleoside kinase that preferentially 
phosphorylates cytidine to yield its 5'-monophosphate form has been isolated
from Escherichia coli [2].
 
URIDINKINASE is a 6-element fingerprint that provides a signature for the
uridine kinase family. The fingerprint was derived from an initial alignment
of 7 sequences: the motifs were drawn from conserved regions spanning 
virtually the full alignment length. Two iterations on OWL30.2 were required 
to reach convergence, at which point a true set comprising 9 sequences was
identified. Several partial matches were also found: D78335 is a human gene 
product that matches motifs 4-6; CEB00012 is a Caenorhabditis elegans
cosmid sequence that matches motifs 1, 3 and 6; and KPPR_MESCR and OSPRK
are closely related phosphoribulokinases that match motifs 3 and 6.
 
An update on SPTR37_9f identified a true set of 9 sequences, and 10
partial matches.
Summary Information
   9 codes involving  6 elements
0 codes involving 5 elements
0 codes involving 4 elements
2 codes involving 3 elements
7 codes involving 2 elements
Composite Feature Index
6999999
5000000
4000000
3101211
2106016
123456
True Positives
O32033        O74427        Q19583        URK1_YEAST    
URK_BORBU URK_ECOLI URK_HAEIN URK_MYCGE
URK_MYCPN
True Positive Partials
Codes involving 3 elements
O83673 Q92528
Codes involving 2 elements
KPPR_CHLRE KPPR_MESCR KPPR_SPIOL KPPR_WHEAT
O26543 Q17413 Q95033
Sequence Titles
O32033      URIDINE KINASE (EC 2.7.1.48) - BACILLUS SUBTILIS. 
O74427 PUTITIVE URIDINE KINASE - SCHIZOSACCHAROMYCES POMBE (FISSION YEAST).
Q19583 F19B6.1A PROTEIN - CAENORHABDITIS ELEGANS.
URK1_YEAST URIDINE KINASE (EC 2.7.1.48) (URIDINE MONOPHOSPHOKINASE) - SACCHAROMYCES CEREVISIAE (BAKER'S YEAST).
URK_BORBU URIDINE KINASE (EC 2.7.1.48) (URIDINE MONOPHOSPHOKINASE) (PYRIMIDINE RIBONUCLEOSIDE KINASE) - BORRELIA BURGDORFERI (LYME DISEASE SPIROCHETE).
URK_ECOLI URIDINE KINASE (EC 2.7.1.48) (URIDINE MONOPHOSPHOKINASE) (PYRIMIDINE RIBONUCLEOSIDE KINASE) - ESCHERICHIA COLI.
URK_HAEIN URIDINE KINASE (EC 2.7.1.48) (URIDINE MONOPHOSPHOKINASE) (PYRIMIDINE RIBONUCLEOSIDE KINASE) - HAEMOPHILUS INFLUENZAE.
URK_MYCGE URIDINE KINASE (EC 2.7.1.48) (URIDINE MONOPHOSPHOKINASE) - MYCOPLASMA GENITALIUM.
URK_MYCPN URIDINE KINASE (EC 2.7.1.48) (URIDINE MONOPHOSPHOKINASE) - MYCOPLASMA PNEUMONIAE.

O83673 URIDINE KINASE (UDK) - TREPONEMA PALLIDUM.
Q92528 5'-TERMINAL REGION OF UMK - HOMO SAPIENS (HUMAN).

KPPR_CHLRE PHOSPHORIBULOKINASE PRECURSOR (EC 2.7.1.19) (PHOSPHOPENTOKINASE) (PRKASE) (PRK) - CHLAMYDOMONAS REINHARDTII.
KPPR_MESCR PHOSPHORIBULOKINASE PRECURSOR (EC 2.7.1.19) (PHOSPHOPENTOKINASE) (PRKASE) (PRK) - MESEMBRYANTHEMUM CRYSTALLINUM (COMMON ICE PLANT).
KPPR_SPIOL PHOSPHORIBULOKINASE PRECURSOR (EC 2.7.1.19) (PHOSPHOPENTOKINASE) (PRKASE) (PRK) - SPINACIA OLERACEA (SPINACH).
KPPR_WHEAT PHOSPHORIBULOKINASE PRECURSOR (EC 2.7.1.19) (PHOSPHOPENTOKINASE) (PRKASE) (PRK) - TRITICUM AESTIVUM (WHEAT).
O26543 EXCINUCLEASE ABC SUBUNIT A - METHANOBACTERIUM THERMOAUTOTROPHICUM.
Q17413 PUTATIVE URIDINE KINASE (EC 2.7.1.48) (URIDINE MONOPHOSPHOKINASE) - CAENORHABDITIS ELEGANS.
Q95033 PHOSPHORIBULOKINASE PRECURSOR (EC 2.7.1.19) (PHOSPHOPENTOKINASE) - ODONTELLA SINENSIS.
Scan History
OWL30_2    2  75   NSINGLE    
SPTR37_9f 2 112 NSINGLE
Initial Motifs
Motif 1  width=18
Element Seqn Id St Int Rpt
AKIIGISGGSGSGKTTVV URK_BORBU 2 2 -
CVIIGIAGASASGKSLIA URK_ECOLI 8 8 -
GILVAISGGSCSGKTTVA URK_MYCGE 5 5 -
GILVAIGGGSCSGKTTIA URK_MYCPN 6 6 -
PYIIGIGGASGSGKTSVA URK1_YEAST 56 56 -
PFLIGVSGGTASGKSTVC URK1_MOUSE 6 6 -
CIIIAITGASASGKSSIA URK_HAEIN 6 6 -

Motif 2 width=12
Element Seqn Id St Int Rpt
VLISQDNYYKSV URK_BORBU 30 10 -
AIICQDNYYKSY URK_MYCGE 36 13 -
VILSQDCFYKVL URK1_MOUSE 43 19 -
VLISLDNFYNPL URK1_YEAST 86 12 -
AILPQDNYYKPY URK_MYCPN 37 13 -
GIITEDSYYKDQ URK_HAEIN 40 16 -
GVIPEDCYYKDQ URK_ECOLI 42 16 -

Motif 3 width=16
Element Seqn Id St Int Rpt
GSIVNVPLYDYINYTR URK_MYCGE 81 33 -
GKTVEVPTYDFVTHSR URK1_MOUSE 90 35 -
GSAVDVPVYSYVEHTR URK_HAEIN 85 33 -
NSPIDMPLYDFINHKR URK_BORBU 74 32 -
GSAIDLPVYSYVEHTR URK_ECOLI 87 33 -
GKTVAVPMYDYVNYTR URK_MYCPN 82 33 -
GKRTNIPVYSFVHHNR URK1_YEAST 133 35 -

Motif 4 width=11
Element Seqn Id St Int Rpt
EERLIRRIERD URK_MYCPN 138 40 -
DVRLSRRVLRD URK1_MOUSE 146 40 -
DVCLARRLSRD URK1_YEAST 190 41 -
DICFIRRLQRD URK_HAEIN 141 40 -
DIRFIRRLRRD URK_BORBU 130 40 -
DICLMRRIKRD URK_ECOLI 143 40 -
EERLIRRIERD URK_MYCGE 137 40 -

Motif 5 width=12
Element Seqn Id St Int Rpt
RGRTVESVIDQY URK_BORBU 144 3 -
RGRSLQSVIDQY URK_HAEIN 155 3 -
RGRSMDSVMAQY URK_ECOLI 157 3 -
RGRNIDSIIKQW URK_MYCGE 150 2 -
RGRDVASIIKQW URK_MYCPN 151 2 -
RGRDLDGCIQQW URK1_YEAST 204 3 -
RGRDLEQILTQY URK1_MOUSE 159 2 -

Motif 6 width=14
Element Seqn Id St Int Rpt
FIEPSKQYADIIVP URK_ECOLI 179 10 -
FVKPTMKNADAIIP URK1_YEAST 226 10 -
FIEPSKQYADIVIP URK_HAEIN 177 10 -
FVEKMKQKADLIIP URK_MYCPN 173 10 -
FCLPTKKYADVIIP URK1_MOUSE 181 10 -
FVEKMKRNADLILP URK_MYCGE 172 10 -
FIEPTKEYADLIIP URK_BORBU 166 10 -
Final Motifs
Motif 1  width=18
Element Seqn Id St Int Rpt
CIIIAITGASASGKSSIA URK_HAEIN 6 6 -
AKIIGISGGSGSGKTTVV URK_BORBU 2 2 -
CVIIGIAGASASGKSLIA URK_ECOLI 8 8 -
PVVIGIAGGSGSGKTSVT O32033 5 5 -
GILVAISGGSCSGKTTVA URK_MYCGE 5 5 -
GILVAIGGGSCSGKTTIA URK_MYCPN 6 6 -
PFVIGVCGGSASGKTTVA Q19583 64 64 -
PYIIGIGGASGSGKTSVA URK1_YEAST 56 56 -
VRFIGIAGPSGSGKTSVA O74427 21 21 -

Motif 2 width=12
Element Seqn Id St Int Rpt
GIITEDSYYKDQ URK_HAEIN 40 16 -
VLISQDNYYKSV URK_BORBU 30 10 -
GVIPEDCYYKDQ URK_ECOLI 42 16 -
LMIQQDLYYKDQ O32033 35 12 -
AIICQDNYYKSY URK_MYCGE 36 13 -
AILPQDNYYKPY URK_MYCPN 37 13 -
TILSMDSFYKVL Q19583 94 12 -
VLISLDNFYNPL URK1_YEAST 86 12 -
VILSLDSFYKSL O74427 51 12 -

Motif 3 width=16
Element Seqn Id St Int Rpt
GSAVDVPVYSYVEHTR URK_HAEIN 85 33 -
NSPIDMPLYDFINHKR URK_BORBU 74 32 -
GSAIDLPVYSYVEHTR URK_ECOLI 87 33 -
YRPIEKPIYDYKLHTR O32033 80 33 -
GSIVNVPLYDYINYTR URK_MYCGE 81 33 -
GKTVAVPMYDYVNYTR URK_MYCPN 82 33 -
GKSVDVPVYDFNTHSR Q19583 141 35 -
GKRTNIPVYSFVHHNR URK1_YEAST 133 35 -
GRKVDIPIYSFNEHNR O74427 98 35 -

Motif 4 width=11
Element Seqn Id St Int Rpt
DICFIRRLQRD URK_HAEIN 141 40 -
DIRFIRRLRRD URK_BORBU 130 40 -
DICLMRRIKRD URK_ECOLI 143 40 -
DLRIIRRIMRD O32033 136 40 -
EERLIRRIERD URK_MYCGE 137 40 -
EERLIRRIERD URK_MYCPN 138 40 -
DLRLARRIVRD Q19583 197 40 -
DVCLARRLSRD URK1_YEAST 190 41 -
DVCLSRRLNRD O74427 154 40 -

Motif 5 width=12
Element Seqn Id St Int Rpt
RGRSLQSVIDQY URK_HAEIN 155 3 -
RGRTVESVIDQY URK_BORBU 144 3 -
RGRSMDSVMAQY URK_ECOLI 157 3 -
RGRSIDSVIEQY O32033 150 3 -
RGRNIDSIIKQW URK_MYCGE 150 2 -
RGRDVASIIKQW URK_MYCPN 151 2 -
RGRDIDGIMEQY Q19583 211 3 -
RGRDLDGCIQQW URK1_YEAST 204 3 -
RGRDIVGVLEQY O74427 168 3 -

Motif 6 width=14
Element Seqn Id St Int Rpt
FIEPSKQYADIVIP URK_HAEIN 177 10 -
FIEPTKEYADLIIP URK_BORBU 166 10 -
FIEPSKQYADIIVP URK_ECOLI 179 10 -
FVEPTKRYADIIIP O32033 172 10 -
FVEKMKRNADLILP URK_MYCGE 172 10 -
FVEKMKQKADLIIP URK_MYCPN 173 10 -
YIAPCMDSADLIVP Q19583 233 10 -
FVKPTMKNADAIIP URK1_YEAST 226 10 -
FVRRQLSYTDLIVP O74427 190 10 -